On 18/7/08 13:48, "Guy Bottu" <[EMAIL PROTECTED]> wrote: > Staffa, Nick (NIH/NIEHS) wrote: >> I would really appreciate any evaluation of the editor SEAVIEW by anyone >> reading this. >> Do you think SeaView is as good as SeqLab > > Dear Nick, > > Well, at the BEN site I installed SeaView as replacement, when we lost > GCG+SeqLab. SeqLab does multiple sequence editing + graphical display of > features + allows to execute programs on sequence (ranges). SeaView is > basically > just an editor (although it can call clustal or muscle to re-align portions of > the aligment, and make a dotplot). What I find a great loss is that in SeqLab > you can with the mouse select a block and then with one click delete it, while > with SeaView you need to press as many time the <backspace> as there are > columns > to delete. But if you have nothing else SeaView is certainly not bad. It has > the > advantage to be freeware and that there are versions for several platforms. > You can install it and test it yourself. It is in principle easy to install > (although there might be problems with prerequisite libraries). You can obtain > it from ftp://pbil.univ-lyon1.fr/pub/mol_phylogeny/seaview (and in some LINUX > distributions like Gentoo it is actually vailable). If you run into trouble I > am > willing to give some advice.
You might want to take a look at Jalview 2 which will do editing, MSA, feature display and more. OK, I am a little biased (it is developed in our group) but a quick rundown of the key features: * edit on blocks/ranges * edit using representative sequences * Multiple views on the same alignment * features from arbitrary DAS servers (even map protein features onto DNA.) * integration with jmol for structure viewing * hide/display arbitrary columns/rows. * Multiple sequence alignment (Clustal, MAFFT, Muscle) * Tree construction on arbitrary regions. Available from Jalview.org ..d -- David Martin PhD Post-Genomics and Molecular Interactions Centre University of Dundee http://www.compbio.dundee.ac.uk/ The University of Dundee is a registered Scottish charity, No: SC015096 _______________________________________________ EMBOSS mailing list [email protected] http://lists.open-bio.org/mailman/listinfo/emboss
